Cell-specific chemotyping and multivariate imaging by combined FT-IR microspectroscopy and orthogonal projections to latent structures (OPLS) analysis reveals the chemical landscape of secondary xylem.
Identifieur interne : 002F71 ( Main/Exploration ); précédent : 002F70; suivant : 002F72Cell-specific chemotyping and multivariate imaging by combined FT-IR microspectroscopy and orthogonal projections to latent structures (OPLS) analysis reveals the chemical landscape of secondary xylem.
Auteurs : András Gorzsás [Suède] ; Hans Stenlund ; Per Persson ; Johan Trygg ; Björn SundbergSource :
- The Plant journal : for cell and molecular biology [ 1365-313X ] ; 2011.
Descripteurs français
- KwdFr :
- Analyse discriminante (MeSH), Analyse multifactorielle (MeSH), Arabidopsis (composition chimique), Cellulose (composition chimique), Paroi cellulaire (composition chimique), Populus (composition chimique), Spectroscopie infrarouge à transformée de Fourier (méthodes), Traitement d'image par ordinateur (méthodes), Xylème (composition chimique).
- MESH :
- composition chimique : Arabidopsis, Cellulose, Paroi cellulaire, Populus, Xylème.
- méthodes : Spectroscopie infrarouge à transformée de Fourier, Traitement d'image par ordinateur.
- Analyse discriminante, Analyse multifactorielle.
English descriptors
- KwdEn :
- MESH :
- chemical , chemistry : Cellulose.
- chemistry : Arabidopsis, Cell Wall, Populus, Xylem.
- methods : Image Processing, Computer-Assisted, Spectroscopy, Fourier Transform Infrared.
- Discriminant Analysis, Multivariate Analysis.
Abstract
Fourier-transform infrared (FT-IR) spectroscopy combined with microscopy enables chemical information to be acquired from native plant cell walls with high spatial resolution. Combined with a 64 × 64 focal plane array (FPA) detector, 4096 spectra can be simultaneously obtained from a 0.3 × 0.3 mm image; each spectrum represents a compositional and structural 'fingerprint' of all cell wall components. For optimal use and analysis of such a large amount of information, multivariate approaches are preferred. Here, FT-IR microspectroscopy with FPA detection is combined with orthogonal projections to latent structures discriminant analysis (OPLS-DA). This allows for: (i) the extraction of spectra from single cell types, (ii) identification and characterization of different chemotypes using the full spectral information, and (iii) further visualization of the pattern of identified chemotypes by multivariate imaging. As proof of concept, the chemotypes of Populus tremula xylem cell types are described. The approach revealed unknown features about chemical plasticity and patterns of lignin composition in wood fibers that would have remained hidden in the dataset with traditional data analysis. The applicability of the method to Arabidopsis xylem and its usefulness in mutant chemotyping is also demonstrated. The methodological approach is not limited to xylem tissues but can be applied to any plant organ/tissue also using other techniques such as Raman and UV microspectroscopy.
DOI: 10.1111/j.1365-313X.2011.04542.x
PubMed: 21332846
Affiliations:
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Sweden Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå SE-90187, Sweden Department of Chemistry, Umeå University, Umeå SE-90187</wicri:regionArea><wicri:noRegion>Umeå SE-90187</wicri:noRegion></affiliation></author><author><name sortKey="Stenlund, Hans" sort="Stenlund, Hans" uniqKey="Stenlund H" first="Hans" last="Stenlund">Hans Stenlund</name></author><author><name sortKey="Persson, Per" sort="Persson, Per" uniqKey="Persson P" first="Per" last="Persson">Per Persson</name></author><author><name sortKey="Trygg, Johan" sort="Trygg, Johan" uniqKey="Trygg J" first="Johan" last="Trygg">Johan Trygg</name></author><author><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2011">2011</date><idno type="RBID">pubmed:21332846</idno><idno type="pmid">21332846</idno><idno 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Sweden Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå SE-90187, Sweden Department of Chemistry, Umeå University, Umeå SE-90187, Sweden.</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Umeå SE-90183, Sweden Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå SE-90187, Sweden Department of Chemistry, Umeå University, Umeå SE-90187</wicri:regionArea><wicri:noRegion>Umeå SE-90187</wicri:noRegion></affiliation></author><author><name sortKey="Stenlund, Hans" sort="Stenlund, Hans" uniqKey="Stenlund H" first="Hans" last="Stenlund">Hans Stenlund</name></author><author><name sortKey="Persson, Per" sort="Persson, Per" uniqKey="Persson P" first="Per" last="Persson">Per Persson</name></author><author><name sortKey="Trygg, Johan" sort="Trygg, Johan" uniqKey="Trygg J" first="Johan" last="Trygg">Johan Trygg</name></author><author><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name></author></analytic><series><title level="j">The Plant journal : for cell and molecular biology</title><idno type="eISSN">1365-313X</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Arabidopsis (chemistry)</term><term>Cell Wall (chemistry)</term><term>Cellulose (chemistry)</term><term>Discriminant Analysis (MeSH)</term><term>Image Processing, Computer-Assisted (methods)</term><term>Multivariate Analysis (MeSH)</term><term>Populus (chemistry)</term><term>Spectroscopy, Fourier Transform Infrared (methods)</term><term>Xylem (chemistry)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse discriminante (MeSH)</term><term>Analyse multifactorielle (MeSH)</term><term>Arabidopsis (composition chimique)</term><term>Cellulose (composition chimique)</term><term>Paroi cellulaire (composition chimique)</term><term>Populus (composition chimique)</term><term>Spectroscopie infrarouge à transformée de Fourier (méthodes)</term><term>Traitement d'image par ordinateur (méthodes)</term><term>Xylème (composition chimique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Cellulose</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Arabidopsis</term><term>Cell Wall</term><term>Populus</term><term>Xylem</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Arabidopsis</term><term>Cellulose</term><term>Paroi cellulaire</term><term>Populus</term><term>Xylème</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Image Processing, Computer-Assisted</term><term>Spectroscopy, Fourier Transform Infrared</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Spectroscopie infrarouge à transformée de Fourier</term><term>Traitement d'image par ordinateur</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Discriminant Analysis</term><term>Multivariate Analysis</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse discriminante</term><term>Analyse multifactorielle</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Fourier-transform infrared (FT-IR) spectroscopy combined with microscopy enables chemical information to be acquired from native plant cell walls with high spatial resolution. Combined with a 64 × 64 focal plane array (FPA) detector, 4096 spectra can be simultaneously obtained from a 0.3 × 0.3 mm image; each spectrum represents a compositional and structural 'fingerprint' of all cell wall components. For optimal use and analysis of such a large amount of information, multivariate approaches are preferred. Here, FT-IR microspectroscopy with FPA detection is combined with orthogonal projections to latent structures discriminant analysis (OPLS-DA). This allows for: (i) the extraction of spectra from single cell types, (ii) identification and characterization of different chemotypes using the full spectral information, and (iii) further visualization of the pattern of identified chemotypes by multivariate imaging. As proof of concept, the chemotypes of Populus tremula xylem cell types are described. The approach revealed unknown features about chemical plasticity and patterns of lignin composition in wood fibers that would have remained hidden in the dataset with traditional data analysis. The applicability of the method to Arabidopsis xylem and its usefulness in mutant chemotyping is also demonstrated. The methodological approach is not limited to xylem tissues but can be applied to any plant organ/tissue also using other techniques such as Raman and UV microspectroscopy.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21332846</PMID><DateCompleted><Year>2011</Year><Month>09</Month><Day>08</Day></DateCompleted><DateRevised><Year>2011</Year><Month>05</Month><Day>24</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-313X</ISSN><JournalIssue CitedMedium="Internet"><Volume>66</Volume><Issue>5</Issue><PubDate><Year>2011</Year><Month>Jun</Month></PubDate></JournalIssue><Title>The Plant journal : for cell and molecular biology</Title><ISOAbbreviation>Plant J</ISOAbbreviation></Journal><ArticleTitle>Cell-specific chemotyping and multivariate imaging by combined FT-IR microspectroscopy and orthogonal projections to latent structures (OPLS) analysis reveals the chemical landscape of secondary xylem.</ArticleTitle><Pagination><MedlinePgn>903-14</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1365-313X.2011.04542.x</ELocationID><Abstract><AbstractText>Fourier-transform infrared (FT-IR) spectroscopy combined with microscopy enables chemical information to be acquired from native plant cell walls with high spatial resolution. Combined with a 64 × 64 focal plane array (FPA) detector, 4096 spectra can be simultaneously obtained from a 0.3 × 0.3 mm image; each spectrum represents a compositional and structural 'fingerprint' of all cell wall components. For optimal use and analysis of such a large amount of information, multivariate approaches are preferred. Here, FT-IR microspectroscopy with FPA detection is combined with orthogonal projections to latent structures discriminant analysis (OPLS-DA). This allows for: (i) the extraction of spectra from single cell types, (ii) identification and characterization of different chemotypes using the full spectral information, and (iii) further visualization of the pattern of identified chemotypes by multivariate imaging. As proof of concept, the chemotypes of Populus tremula xylem cell types are described. The approach revealed unknown features about chemical plasticity and patterns of lignin composition in wood fibers that would have remained hidden in the dataset with traditional data analysis. The applicability of the method to Arabidopsis xylem and its usefulness in mutant chemotyping is also demonstrated. The methodological approach is not limited to xylem tissues but can be applied to any plant organ/tissue also using other techniques such as Raman and UV microspectroscopy.</AbstractText><CopyrightInformation>© 2011 The Authors. The Plant Journal © 2011 Blackwell Publishing Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Gorzsás</LastName><ForeName>András</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Umeå SE-90183, Sweden Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå SE-90187, Sweden Department of Chemistry, Umeå University, Umeå SE-90187, Sweden.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Stenlund</LastName><ForeName>Hans</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Persson</LastName><ForeName>Per</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Trygg</LastName><ForeName>Johan</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Sundberg</LastName><ForeName>Björn</ForeName><Initials>B</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2011</Year><Month>03</Month><Day>21</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Plant J</MedlineTA><NlmUniqueID>9207397</NlmUniqueID><ISSNLinking>0960-7412</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>9004-34-6</RegistryNumber><NameOfSubstance UI="D002482">Cellulose</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017360" MajorTopicYN="N">Arabidopsis</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D002473" MajorTopicYN="N">Cell Wall</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D002482" MajorTopicYN="N">Cellulose</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016002" MajorTopicYN="N">Discriminant Analysis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007091" MajorTopicYN="N">Image Processing, Computer-Assisted</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015999" MajorTopicYN="N">Multivariate Analysis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017550" MajorTopicYN="N">Spectroscopy, Fourier Transform Infrared</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D052584" MajorTopicYN="N">Xylem</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2011</Year><Month>2</Month><Day>22</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>2</Month><Day>22</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2011</Year><Month>9</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">21332846</ArticleId><ArticleId IdType="doi">10.1111/j.1365-313X.2011.04542.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Suède</li></country></list><tree><noCountry><name sortKey="Persson, Per" sort="Persson, Per" uniqKey="Persson P" first="Per" last="Persson">Per Persson</name><name sortKey="Stenlund, Hans" sort="Stenlund, Hans" uniqKey="Stenlund H" first="Hans" last="Stenlund">Hans Stenlund</name><name sortKey="Sundberg, Bjorn" sort="Sundberg, Bjorn" uniqKey="Sundberg B" first="Björn" last="Sundberg">Björn Sundberg</name><name sortKey="Trygg, Johan" sort="Trygg, Johan" uniqKey="Trygg J" first="Johan" last="Trygg">Johan Trygg</name></noCountry><country name="Suède"><noRegion><name sortKey="Gorzsas, Andras" sort="Gorzsas, Andras" uniqKey="Gorzsas A" first="András" last="Gorzsás">András Gorzsás</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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